Hi
I am trying to do the functional connectivity analysis on a single slice (2D) of rat brain acquired with EPI, for 5 minutes, around 3000 time points.
您好，我看了下rest工具包，读数据有这三个函数。
rest_ReadAnalyzeImage；rest_readfile；rest_ReadNiftiImage；
我试了一下用rest_ReadAnalyzeImage读nifti数据，也能读进matlab里，和用rest_ReadNiftiImage数据的结果是一致的。那么我是不是可以混用呢？
视频中说mricro看不了nifti的结果，可是我用spm8处理之后的img，是可以用mricro看的，这句话如何理解呢？
谢谢
我已经使用DPARSF计算了病人和健康对照的ALFF、fALFF和ReHo，并在spm内比较，得出有显著差异的脑区。我想进一步统计，计算这些有差异的脑区的ALFF等和临床症状的相关性（临床症状是连续性数值）。还有我的问题是如果是三组比较，比如病人一组，有症状但不符合诊断标准的人群为一组，正常人为一组，这个比较在spm里怎么做，还有mask怎么做呢？
rest算出来的相关系数，数学算法是什么，没有找到软件算法的相关文章。
例如，用functional connectivity，算ROI wise，两个ROI之间有个相关系数。
或者算voxel wise时，全脑每个voxel和特定ROI之间的相关系数。
应该不是线性相关，我将time course 用SPSS或者excel算出来的相关系数，和rest的不一样。
是不是考虑了频率成分？
When I load an ".img" to display in the "Slice Viewer" of the"rest",
the size change like as follows:
the image size is 79*95*68.
How to over come is problem? Thank you!
问题1：
DPARSF's standard processing steps:
12. Extract AAL or ROI time courses for further analysis (optional).
对一些数据提取时间序列后，得到的90个时间序列的变量名为AAL??TC如下
AAL62TC: [125x1 double]
尽管可以做初步的功能网络分析，但是不利于后面结合脑神经精神文献和数据进行生物学意义上的讨论。
因此能不能在软件中给出一个AAL??TC与具体的脑区名称相对应的表格。
问题2：
能不能在DPARSF中设计提取所有体素voxels的时间系列？（同时体素的大小可以自定义，以便根据实际的计算能力来决定voxel的数目。）
十分感谢严博！
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Resting-State fMRI Data Analysis Toolkit (REST) is a convenient toolkit to calculate Functional Connectivity (FC), Regional Homogeneity (ReHo), Amplitude of Low-Frequency Fluctuation (ALFF), Fractional ALFF (fALFF), Gragner causality and perform statistical analysis. You also can use REST to view your data, perform Monte Carlo simulation similar to AlphaSim in AFNI, calculate your images, regress out covariates, extract ROI time courses, reslice images, and sort DICOM files. Download a MULTIMEDIA COURSE would be helpful for knowing more about how to use this software. Add REST's directory to MATLAB's path and enter "REST" in the command window of MATLAB to enjoy it. The latest release is REST_V1.6_110505. |
New features of REST V1.6 release 110505:
1. REST-GCA: provides a method that could transform the residual-based F into normally distributed Z score. For more details, please see http://www.restfmri.net/forum/REST-GCA. (ZANG Zhen-Xiang) 2. REST Image Calculator: Fixed an error when processing images of i10, i11.... and supporting keep "shift" key to select multiple groups or images. (DONG Zhang-Ye) 3. REST Slice Viewer: Fixed a bug in dispalying "only -" and a bug in dispaying unerlay with 2x2x2 voxel size. (DONG Zhang-Ye) 4. For defining ROIs, supporting keep "shift" key and select multiple mask files. From "Misc"->"Add multiple user-defined mask files". (DONG Zhang-Ye) 5. For extracting ROI signals, also support Multiple label values in a single mask file. 6. Fixed an error in the future MATLAB version in "[pathstr, name, ext, versn] = fileparts...".
New features of REST V1.5 release 101101:
1. Fixed a bug in rest_RegressOutCovariates_gui.m while processing multiple subjects with different covaribles in batch mode.
New features of REST V1.5 release 101025:
1. Module of Regional Homogeneity based on Coherence (Cohe-ReHo) has been added by LIU Dong-Qiang and DONG Zhang-Ye. For methodology, please see: Liu D, Yan C, Ren J, Yao L, Kiviniemi VJ and Zang Y (2010) Using coherence to measure regional homogeneity of resting-state fMRI signal. Front. Syst. Neurosci. 4:24. doi: 10.3389/fnsys.2010.00024.
2. In previous release of REST, removing covariates effects will also regress out linear trend. Now regressing out linear trend has been canceled in this step. Users can still regress out polynomial effects by using rest_regressOutCovariates.m in command line.
3. For rest_sliceviewer, fixed a bug of in displaying with MATLAB 2010 and support mouse wheel operation.
4. Fixed a bug in converting .nii files into NIfTI pairs (.img/.hdr).
5. Added new function of "corr(i1,i2,'spatial')" in REST Image Calculator.
6. Now can open a yoked structural image in displaying power spectrum.
7. Now can also pick up .nii files in GUI of reslice image.
Visit: http://pub.restfmri.net/log4rest/gchartDownloadCounts.php
Click file's link to get the downloads detail by month.